Benchmarking GNNs for OOD Materials Property Prediction with Uncertainty Quantification
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arXiv
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| Format: | Preprint |
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2025
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| author | Tan, Liqin Chen, Pin Liu, Menghan Wang, Xiean Cen, Jianhuan Zou, Qingsong |
| author_facet | Tan, Liqin Chen, Pin Liu, Menghan Wang, Xiean Cen, Jianhuan Zou, Qingsong |
| contents | We present MatUQ, a benchmark framework for evaluating graph neural networks (GNNs) on out-of-distribution (OOD) materials property prediction with uncertainty quantification (UQ). MatUQ comprises 1,375 OOD prediction tasks constructed from six materials datasets using five OFM-based and a newly proposed structure-aware splitting strategy, SOAP-LOCO, which captures local atomic environments more effectively. We evaluate 12 representative GNN models under a unified uncertainty-aware training protocol that combines Monte Carlo Dropout and Deep Evidential Regression (DER), and introduce a novel uncertainty metric, D-EviU, which shows the strongest correlation with prediction errors in most tasks. Our experiments yield two key findings. First, the uncertainty-aware training approach significantly improves model prediction accuracy, reducing errors by an average of 70.6\% across challenging OOD scenarios. Second, the benchmark reveals that no single model dominates universally: earlier models such as SchNet and ALIGNN remain competitive, while newer models like CrystalFramer and SODNet demonstrate superior performance on specific material properties. These results provide practical insights for selecting reliable models under distribution shifts in materials discovery. |
| format | Preprint |
| id |
arxiv_https___arxiv_org_abs_2511_11697 |
| institution | arXiv |
| publishDate | 2025 |
| record_format | arxiv |
| spellingShingle | Benchmarking GNNs for OOD Materials Property Prediction with Uncertainty Quantification Tan, Liqin Chen, Pin Liu, Menghan Wang, Xiean Cen, Jianhuan Zou, Qingsong Machine Learning Materials Science We present MatUQ, a benchmark framework for evaluating graph neural networks (GNNs) on out-of-distribution (OOD) materials property prediction with uncertainty quantification (UQ). MatUQ comprises 1,375 OOD prediction tasks constructed from six materials datasets using five OFM-based and a newly proposed structure-aware splitting strategy, SOAP-LOCO, which captures local atomic environments more effectively. We evaluate 12 representative GNN models under a unified uncertainty-aware training protocol that combines Monte Carlo Dropout and Deep Evidential Regression (DER), and introduce a novel uncertainty metric, D-EviU, which shows the strongest correlation with prediction errors in most tasks. Our experiments yield two key findings. First, the uncertainty-aware training approach significantly improves model prediction accuracy, reducing errors by an average of 70.6\% across challenging OOD scenarios. Second, the benchmark reveals that no single model dominates universally: earlier models such as SchNet and ALIGNN remain competitive, while newer models like CrystalFramer and SODNet demonstrate superior performance on specific material properties. These results provide practical insights for selecting reliable models under distribution shifts in materials discovery. |
| title | Benchmarking GNNs for OOD Materials Property Prediction with Uncertainty Quantification |
| topic | Machine Learning Materials Science |
| url | https://arxiv.org/abs/2511.11697 |